RetrogeneDB ID: retro_tsyr_412

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_112620:886..1674(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: NFS1
• Ensembl ID: ENSTSYG00000005561
• Aliases: None
• Description: NFS1 nitrogen fixation 1 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:15910]

Sequence

>retro_tsyr_412
ATACTGCTACGAACAGCCTGGAGGCGGGCGGCCTTGGCAGTGAAGGCGGCTCCGGGGCCGAGGCCCGCGGTCCCCTCTCC
GGGGCTGCGCCTGCGCGTTGTGGACCATGCGCCCCAGTCGGTGGTTCCCTCCGACAGGATAGGGGCTCCGGAGGCGGGGT
TAGTGCTACGTCCGCTCTACATGGATGTGCAAGCCATGACTCCGCTGGACCCTCGAGTGCTTGATGCCATGCTCCCTCAC
CTGGTCAACTACTACGGGAACCCACTCTCCCGGACGCATGCTCATAGCTGGGAGAGTGAGGCAGCCATGGAACATGCTCG
CCATCAAGTAGCATCTCTCATTGGGGCTGATCCTCGTGAGGTCCTTTTTACTAGTGGCGCGACCGAATCTAACAACATAG
CAATTAAGGGTGTGGCCAAGTTCTATAGATCACGGAAAAAGCGCTTGATCACCACCCAGACAGAACACAAATGTGTTTTG
GACACTTGCCGTTCACTGGAAGCTGAGGTCTTTCAGGTTACTTACCTCCCAGTACAGAAGAGTGGGATCATCGACCTGAA
GAAACTCGAGGCTGCTATCCAGGAAGACACTAGCCTGGTCTCAGTCATGACTGTGAACAATGAAATTGGAGTGAAGCAGC
CTATTGCAGAAATAGGGCGGATTTGCAGTTCCAGAAAGGTGTATTTCCATACTGATGCAGCCTAGGCTGTTGGAAAAATC
CCACTTGATGTCAACGACATGAAAATTGATCTCATGAGTATCAGTGGTCACAAATCTATGGTCCGAAG

Alignment

ORF - retro_tsyr_412 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.42 %
• Parental protein coverage: 57.55 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MLLRAAWRRAALAVKAAPGPRPVVPSRGLRLRVVDHAPQSVVPSDRIVAPEAGSVLRPLYMDVQATTPLD
          .LLR.AWRRAALAVKAAPGPRP.VPS.GLRLRVVDHAPQSVVPSDRI.APEAG.VLRPLYMDVQA.TPLD
Retrocopy ILLRTAWRRAALAVKAAPGPRPAVPSPGLRLRVVDHAPQSVVPSDRIGAPEAGLVLRPLYMDVQAMTPLD

Parental  PRVLDAMLPYLVNYYGNPHSRTHAYGWESEAAMEHARQQVASLIGADPREVIFTSGATESNNIAIKGVAR
          PRVLDAMLP.LVNYYGNP.SRTHA..WESEAAMEHAR.QVASLIGADPREV.FTSGATESNNIAIKGVA.
Retrocopy PRVLDAMLPHLVNYYGNPLSRTHAHSWESEAAMEHARHQVASLIGADPREVLFTSGATESNNIAIKGVAK

Parental  FYRSRKKHLITTQTEHKCVLDSCRSLEAEGFQVTYLPVQKSGIIDLKELEAAIQEDTSLVSVMTVNNEIG
          FYRSRKK.LITTQTEHKCVLD.CRSLEAE.FQVTYLPVQKSGIIDLK.LEAAIQEDTSLVSVMTVNNEIG
Retrocopy FYRSRKKRLITTQTEHKCVLDTCRSLEAEVFQVTYLPVQKSGIIDLKKLEAAIQEDTSLVSVMTVNNEIG

Parental  VKQPIAEIGRICSSRKVYFHTDAAQAVGKIPLDVNDMKIDLMSISGHK-IYGPK
          VKQPIAEIGRICSSRKVYFHTDAA.AVGKIPLDVNDMKIDLMSISGHK.IYGPK
Retrocopy VKQPIAEIGRICSSRKVYFHTDAA*AVGKIPLDVNDMKIDLMSISGHK<IYGPK

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tarsius syrichta was not studied using RNA-Seq expression data.

ChIP-Seq

Tarsius syrichta was not studied using ChIP-Seq data.

EST

Tarsius syrichta was not studied using EST data.

TSS

Tarsius syrichta was not studied using FANTOM5 data.

Lab

retro_tsyr_412 was not experimentally validated.

Homology

Retrocopy orthology:

Tarsius syrichta does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

---

Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Loxodonta africana	ENSLAFG00000010393	1 retrocopy	retro_lafr_141,
Oryctolagus cuniculus	ENSOCUG00000017050	1 retrocopy	retro_ocun_1214,
Tarsius syrichta	ENSTSYG00000002756	1 retrocopy	retro_tsyr_1779,
Tarsius syrichta	ENSTSYG00000005561	1 retrocopy	retro_tsyr_412 ,
Xenopus tropicalis	ENSXETG00000007430	1 retrocopy	retro_xtro_67,